June 22, 2015

How do human gut microbiomes change after death, microbiome of Gulf of Mexico 1 year after Deepwater Horizon, and mining microbial dark matter.

Human gut microbiome

Estimating Time Since Death from Postmortem Human Gut Microbial Communities – Kathleen A. Hauther – Journal of Forensic Sciences

16S rRNA gene-based profiling of the human infant gut microbiota is strongly influenced by sample processing and PCR primer choice – Alan W. Walker – Microbiome Journal

Review: Peripheral aetiopathogenic drivers and mediators of Parkinson’s disease and co-morbidities: role of gastrointestinal microbiota – Sylvia M. Dobbs – Journal of NeuroVirology

Animal models

The effects of xylo-oligosaccharides on performance and microbiota in broiler chickens – De Maesschalck C – Applied and Environmental Microbiology

A comparison of faecal microbial populations of South African Windsnyer-type indigenous pigs (SAWIP) and Large White x Landrace (LW x LR) crosses fed diets containing ensiled maize cobs – Arnold T. Kanengoni – FEMS Microbiology Letters

Plant, root, and soil microbiome

Illumina-based analysis the microbial diversity associated with Thalassia hemprichii in Xincun Bay, South China Sea – Yu-Feng Jiang – Ecotoxicology

Methanotrophic and methanogenic communities in Swiss alpine fens dominated by Carex rostrata and Eriophorum angustifolium – Simrita Cheema – Applied and Environmental Microbiology

Antibacterial effect of the Trichoderma viride fungi on soil microbiome during PAH’s biodegradation – Zuzanna Szczepaniak – International Biodeterioration & Biodegradation

Water microbiome

Microbial community composition, functions and activities in the Gulf of Mexico, one
year after the Deepwater Horizon accident – Etienne Yergeau – Applied and Environmental Microbiology

Metagenomics and Bioinformatics

Compact graphical representation of phylogenetic data and metadata with GraPhlAn – Francesco Asnicar – PeerJ


Design and application of a synthetic DNA standard for real-time PCR analysis of microbial communities in a biogas digester – T. May – Applied Microbiology and Biotechnology

Optimizing a PCR protocol for cpn60-based microbiome profiling of samples variously contaminated with host genomic DNA – Lisa A Johnson – BMC Research Notes

Microbes in the news

Mining the microbial dark matter: Microbiologists are finding new ways to explore the vast universe of unknown microbes in the hunt for antibiotics – Corie Lok – Nature

Legumes control infection of nodules by both symbiotic and endophytic bacteria – Aarhus University

Correlation does not mean causation: Yogurt’s Probiotics Can Help Boost Your Socialization Skills – Daily Times Gazette

Teenager killed by plague in rural northern Colorado – Daniel Wallis – Reuters

Recent Built Environment Microbiology papers, June 21 edition – Elisabeth M Bik – MicroBE.net

Science, publishing, and career

Cold E-mails and Hot Coffee: Take action on your career – Albert Chen et al. – Science

Reset your brain: A bit of self-reflection can propel scientists into a career beyond the lab – Christopher Taylor – Nature

Enough talk. There are ways we can help women in science now – Athene Donald – The Guardian

Bik’s Picks

Neanderthal hybrid suggests modern humans bred with them much later than thought – Rachel Feltman – Washington Post

What Pope Francis and scientists have in common when they look at the natural world – Chris Mooney – Washington Post

Musicians don’t just hear in tune, they also see in tune – Science Daily


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